public void ValidateSparseSequenceGetComplementedSequence()
{
byte[] byteArrayObj = encodingObj.GetBytes("ACGT");
IEnumerable <byte> seqItems =
new List <Byte>()
{
byteArrayObj[0], byteArrayObj[1], byteArrayObj[2], byteArrayObj[3]
};
SparseSequence sparseSeqObj = new SparseSequence(Alphabets.DNA, 0, seqItems);
ISequence revSeqObj = sparseSeqObj.GetComplementedSequence();
byteArrayObj = encodingObj.GetBytes("TGCA");
for (int i = 0; i < byteArrayObj.Length; i++)
{
Assert.AreEqual(byteArrayObj[i], revSeqObj[i]);
}
Console.WriteLine(
"SparseSequenceBVT: Validation of GetComplementedSequence() method successfully completed");
ApplicationLog.WriteLine(
"SparseSequenceBVT: Validation of GetComplementedSequence() method successfully completed");
}
public void TestSparseSequenceComplementMethods()
{
ISequence seq = new Sequence(Alphabets.DNA, "ATGC");
var sparseSeq = new SparseSequence(Alphabets.DNA, 1, seq);
ISequence compSeq = sparseSeq.GetComplementedSequence();
Assert.AreEqual(5, compSeq.Count);
Assert.AreEqual(0, compSeq[0]);
Assert.AreEqual(Alphabets.DNA.T, compSeq[1]);
Assert.AreEqual(Alphabets.DNA.A, compSeq[2]);
Assert.AreEqual(Alphabets.DNA.C, compSeq[3]);
Assert.AreEqual(Alphabets.DNA.G, compSeq[4]);
compSeq = sparseSeq.GetReversedSequence();
Assert.AreEqual(5, compSeq.Count);
Assert.AreEqual(0, compSeq[4]);
Assert.AreEqual(Alphabets.DNA.A, compSeq[3]);
Assert.AreEqual(Alphabets.DNA.T, compSeq[2]);
Assert.AreEqual(Alphabets.DNA.G, compSeq[1]);
Assert.AreEqual(Alphabets.DNA.C, compSeq[0]);
compSeq = sparseSeq.GetReverseComplementedSequence();
Assert.AreEqual(5, compSeq.Count);
Assert.AreEqual(0, compSeq[4]);
Assert.AreEqual(Alphabets.DNA.T, compSeq[3]);
Assert.AreEqual(Alphabets.DNA.A, compSeq[2]);
Assert.AreEqual(Alphabets.DNA.C, compSeq[1]);
Assert.AreEqual(Alphabets.DNA.G, compSeq[0]);
}
public void ValidateSparseSequenceGetComplementedSequence()
{
byte[] byteArrayObj = Encoding.ASCII.GetBytes("ACGT");
IEnumerable<byte> seqItems =
new List<Byte> {byteArrayObj[0], byteArrayObj[1], byteArrayObj[2], byteArrayObj[3]};
var sparseSeqObj = new SparseSequence(Alphabets.DNA, 0, seqItems);
ISequence revSeqObj = sparseSeqObj.GetComplementedSequence();
byteArrayObj = Encoding.ASCII.GetBytes("TGCA");
for (int i = 0; i < byteArrayObj.Length; i++)
{
Assert.AreEqual(byteArrayObj[i], revSeqObj[i]);
}
ApplicationLog.WriteLine("SparseSequenceBVT: Validation of GetComplementedSequence() method successfully completed");
}
